Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008492.1 Hibiscus syriacus cultivar Beakdansim tig00111334_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1113585
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:906401 original size:28 final size:28
Alignment explanation
Indices: 906378--906437 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
906368 TTTTTTTTCC
906378 CTTTTTCT-TTTTGATTT-TTCTTTTTT
1 CTTTTTCTATTTTGATTTCTTCTTTTTT
* * *
906404 CTTTTTTTATTTTGTTTTCTTCTTTTTG
1 CTTTTTCTATTTTGATTTCTTCTTTTTT
906432 CTTTTT
1 CTTTTT
906438 TTTTTGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.24
27 8 0.28
28 14 0.48
ACGTcount: A:0.03, C:0.12, G:0.05, T:0.80
Consensus pattern (28 bp):
CTTTTTCTATTTTGATTTCTTCTTTTTT
Found at i:906410 original size:21 final size:19
Alignment explanation
Indices: 906379--906442 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 19
906369 TTTTTTTCCC
906379 TTTTTCTTTTTGATTTTTCT
1 TTTTTCTTTTTGATTTTT-T
*
906399 TTTTTCTTTTTTTATTTTGTT
1 TTTTTC-TTTTTGATTTT-TT
* *
906420 TTCTTCTTTTTGCTTTTTT
1 TTTTTCTTTTTGATTTTTT
906439 TTTT
1 TTTT
906443 GTTTTTGCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 15 0.41
21 16 0.43
22 1 0.03
ACGTcount: A:0.03, C:0.09, G:0.05, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTGATTTTTT
Found at i:906438 original size:28 final size:26
Alignment explanation
Indices: 906378--906448 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
906368 TTTTTTTTCC
* * *
906378 CTTTTTCTTTTTGATTTTTCTTTTTT
1 CTTTTTTTTTTTGTTTTTTCTTTTTG
906404 CTTTTTTTATTTTGTTTTCTTCTTTTTG
1 CTTTTTTT-TTTTGTTTT-TTCTTTTTG
906432 C-TTTTTTTTTTGTTTTT
1 CTTTTTTTTTTTGTTTTT
906449 GCCCTTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 1 0.03
26 16 0.40
27 14 0.35
28 9 0.22
ACGTcount: A:0.03, C:0.10, G:0.06, T:0.82
Consensus pattern (26 bp):
CTTTTTTTTTTTGTTTTTTCTTTTTG
Found at i:911243 original size:30 final size:31
Alignment explanation
Indices: 911162--911245 Score: 77
Period size: 33 Copynumber: 2.7 Consensus size: 31
911152 AAAATGTATG
* *
911162 TATAAT-ATAATAAAATACTAAATAGTAACA
1 TATAATAATAATAAAAAAATAAATAGTAACA
911192 -ATAATAATAAATAAATGAAAAATAAATA-T-ACA
1 TATAATAAT-AAT-AA--AAAAATAAATAGTAACA
911224 TATAATAATAACTAAAAAAATA
1 TATAATAATAA-TAAAAAAATA
911246 GTAATCATAG
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
29 5 0.11
30 9 0.20
31 3 0.07
32 9 0.20
33 10 0.22
34 9 0.20
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (31 bp):
TATAATAATAATAAAAAAATAAATAGTAACA
Found at i:911389 original size:21 final size:21
Alignment explanation
Indices: 911348--911396 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
911338 TAGATAAAAA
* *
911348 ATAATAATATAATATATATAT
1 ATAATAATAGAAAATATATAT
911369 ATAATAATAGGAAAATAATATAAT
1 ATAATAATA-GAAAAT-ATAT-AT
911393 ATAA
1 ATAA
911397 CGCAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 4 0.17
23 4 0.17
24 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATAATAGAAAATATATAT
Found at i:911920 original size:37 final size:37
Alignment explanation
Indices: 911879--911962 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
911869 GATCCTATCG
* *
911879 TTAGGAGTTTAAATAATAGTATAACTCTATCATATTT
1 TTAGGAGTTTAAATAATAGCAAAACTCTATCATATTT
* ** * *
911916 TTAGGAGTTTGAATCCTAGCAAAATTCTATCCTATTT
1 TTAGGAGTTTAAATAATAGCAAAACTCTATCATATTT
911953 TTAGGAGTTT
1 TTAGGAGTTT
911963 GAATCCTAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (37 bp):
TTAGGAGTTTAAATAATAGCAAAACTCTATCATATTT
Found at i:912570 original size:18 final size:19
Alignment explanation
Indices: 912537--912577 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
912527 CTAATGTAAT
*
912537 TATTATTTACAATATGCCAC
1 TATTATTTA-AATATGCAAC
912557 TATTATTT-AATATGCAAC
1 TATTATTTAAATATGCAAC
912575 TAT
1 TAT
912578 ATGATATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
TATTATTTAAATATGCAAC
Found at i:914300 original size:18 final size:19
Alignment explanation
Indices: 914254--914301 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
914244 TAATATACTA
*
914254 ATGAAATTATTATTTACAAT
1 ATGAAACTATTATTTA-AAT
**
914274 ATGCCACTATTATTT-AAT
1 ATGAAACTATTATTTAAAT
914292 ATGAAACTAT
1 ATGAAACTAT
914302 ATGATATGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 11 0.48
20 12 0.52
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (19 bp):
ATGAAACTATTATTTAAAT
Found at i:915085 original size:43 final size:42
Alignment explanation
Indices: 914985--915087 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 42
914975 TGCACTGATT
* * *
914985 CAACTCCTTCTGTGAAGAATCAAGCGAAAGATTTTCACTAATC
1 CAACTCCTTTTGTGAAG-ATCAAGCGAAAGACTGTCACTAATC
* * *
915028 CAACT-TTTTATGTGAATGATCAAGTGAAAGGCTGTCAC-AGATC
1 CAACTCCTTT-TGTGAA-GATCAAGCGAAAGACTGTCACTA-ATC
915071 CAACTCCTTTTGTGAAG
1 CAACTCCTTTTGTGAAG
915088 GATCGAGTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
42 4 0.08
43 41 0.84
44 4 0.08
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (42 bp):
CAACTCCTTTTGTGAAGATCAAGCGAAAGACTGTCACTAATC
Found at i:916497 original size:16 final size:15
Alignment explanation
Indices: 916476--916511 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
916466 AACACCCTTC
916476 CATTTTCTTTTCTTTT
1 CATTTTCTTTT-TTTT
916492 CATTTTCTTTTTTTT
1 CATTTTCTTTTTTTT
916507 -ATTTT
1 CATTTT
916512 TTCTCTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
CATTTTCTTTTTTTT
Found at i:916553 original size:12 final size:11
Alignment explanation
Indices: 916478--916557 Score: 56
Period size: 11 Copynumber: 7.0 Consensus size: 11
916468 CACCCTTCCA
916478 TTTTC-TTTTC
1 TTTTCTTTTTC
*
916488 TTTTCATTTTC
1 TTTTCTTTTTC
*
916499 TTTT-TTTTATT
1 TTTTCTTTT-TC
*
916510 TTTTCTCTTATTT
1 TTTTCT-TT-TTC
* *
916523 TTTTATTTTTT
1 TTTTCTTTTTC
916534 TGTTTCTTCTTTC
1 T-TTTCTT-TTTC
916547 TTTTCTTTTTC
1 TTTTCTTTTTC
916558 AAGCATACTA
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.14
11 22 0.38
12 14 0.24
13 13 0.22
14 1 0.02
ACGTcount: A:0.05, C:0.14, G:0.01, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:928279 original size:67 final size:67
Alignment explanation
Indices: 928196--928335 Score: 244
Period size: 67 Copynumber: 2.1 Consensus size: 67
928186 GAACTTGTGT
*
928196 AAAACATTTAGCGACTAATCGCCCCTTGTATGTTTGTACATTACCATCAATGTCGGTTTTCTTCT
1 AAAACCTTTAGCGACTAATCGCCCCTTGTATGTTTGTACATTACCATCAATGTCGGTTTTCTTCT
*
928261 TG
66 TA
* *
928263 AAAACCTTTAGTGACTAATCGCCCCTTGTATGTTTGTACATTACCATCCATGTCGGTTTTCTTCT
1 AAAACCTTTAGCGACTAATCGCCCCTTGTATGTTTGTACATTACCATCAATGTCGGTTTTCTTCT
928328 TA
66 TA
928330 AAAACC
1 AAAACC
928336 CATTTACACC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (67 bp):
AAAACCTTTAGCGACTAATCGCCCCTTGTATGTTTGTACATTACCATCAATGTCGGTTTTCTTCT
TA
Found at i:935857 original size:266 final size:262
Alignment explanation
Indices: 935376--936144 Score: 1165
Period size: 244 Copynumber: 3.0 Consensus size: 262
935366 TACTAACTAT
* *
935376 TATATGAACTATGTAATATACTAATGCAATTATTATTAACAAAATGCCACTATTATTTAATATGC
1 TATATGAACTATGTAATATACTAATGCAATTATGATTAACAAAATGCCACTATTATTAAATATGC
935441 AACTATATGATATGCAATATAACATATTTAATATGTACTATGTAATATGTAATATGCCATTATCA
66 AACTATATGATATGCAATATAACATATTTAATATGTAC--T-TAATA-GTAATATGCCATTATCA
935506 CATGCAATTATACTATATGATATATGAAACATTATATATTAAACAAAATGATATATGATATATGG
127 CATGCAATTATACTATATGATATATGAAACATTATATATTAAACAAAATGATATATGATATATGG
*
935571 TTGTGAAATGCGCTTACTATATACTATATATATATACACTATATAATAGACCCACACATTTTTTA
192 TTGTGAAATGCACTTACTATATACTATATATATATACACTATATAATAGACCCACACATTTTTTA
935636 TTGCTA
257 TTGCTA
* *
935642 TATATGAACTATGTAATATACTAATGCAATTATGATTTACAATATGCCACTATTATTAAATATGC
1 TATATGAACTATGTAATATACTAATGCAATTATGATTAACAAAATGCCACTATTATTAAATATGC
*
935707 AACTATATGATATGCAATATAACATATTTAATATGTAC-T-ATA-TAATATGCTATTATCACATG
66 AACTATATGATATGCAATATAACATATTTAATATGTACTTAATAGTAATATGCCATTATCACATG
935769 CAATTATACTATATGATATATGAAACATTATATATTAAACAAAATGATATATGATATATGGTTGT
131 CAATTATACTATATGATATATGAAACATTATATATTAAACAAAATGATATATGATATATGGTTGT
* *
935834 GAAATG---TT-C---ATAC------TATAT--ACTATATAATAGGCCCACACATTTTTTATTTC
196 GAAATGCACTTACTATATACTATATATATATACACTATATAATAGACCCACACATTTTTTATTGC
935884 TA
261 TA
* * * *
935886 TATATGAACTATGTAATATACTAATGCAATTATTATTTACAATATGCCACTATTATTTAATATGC
1 TATATGAACTATGTAATATACTAATGCAATTATGATTAACAAAATGCCACTATTATTAAATATGC
*
935951 AACTAAATGATATGCAATATAACATATTTAATATGTAC-T-ATA-TAATATGCCATTATCACATG
66 AACTATATGATATGCAATATAACATATTTAATATGTACTTAATAGTAATATGCCATTATCACATG
936013 CAATTATACTATATGATATATGAAACATTATATATTAAACAAAATGATATATGATATATGGTTGT
131 CAATTATACTATATGATATATGAAACATTATATATTAAACAAAATGATATATGATATATGGTTGT
* * *
936078 GAAATGCACATACTATATAC-A-ATTTATATATACTATATAATATG-CCCACACA-TTTTTATTG
196 GAAATGCACTTACTATATACTATATATATATACACTATATAATA-GACCCACACATTTTTTATTG
*
936139 TTA
260 CTA
936142 TAT
1 TAT
936145 GGAAACCGCC
Statistics
Matches: 475, Mismatches: 14, Indels: 38
0.90 0.03 0.07
Matches are distributed among these distances:
244 226 0.48
246 5 0.01
247 1 0.00
248 1 0.00
251 4 0.01
252 4 0.01
255 6 0.01
256 15 0.03
257 19 0.04
258 1 0.00
259 90 0.19
261 3 0.01
262 1 0.00
266 99 0.21
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.39
Consensus pattern (262 bp):
TATATGAACTATGTAATATACTAATGCAATTATGATTAACAAAATGCCACTATTATTAAATATGC
AACTATATGATATGCAATATAACATATTTAATATGTACTTAATAGTAATATGCCATTATCACATG
CAATTATACTATATGATATATGAAACATTATATATTAAACAAAATGATATATGATATATGGTTGT
GAAATGCACTTACTATATACTATATATATATACACTATATAATAGACCCACACATTTTTTATTGC
TA
Found at i:935949 original size:18 final size:19
Alignment explanation
Indices: 935909--935955 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
935899 TAATATACTA
*
935909 ATGCAATTATTATTTACAAT
1 ATGCAACTATTATTTA-AAT
*
935929 ATGCCACTATTATTT-AAT
1 ATGCAACTATTATTTAAAT
935947 ATGCAACTA
1 ATGCAACTA
935956 AATGATATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
20 13 0.54
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (19 bp):
ATGCAACTATTATTTAAAT
Found at i:940555 original size:20 final size:20
Alignment explanation
Indices: 940518--940556 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
940508 TTTCCACCAC
*
940518 ATGCAACTAAATGCTCCTAA
1 ATGCAACTAAATGATCCTAA
* *
940538 ATGCATCTACATGATCCTA
1 ATGCAACTAAATGATCCTA
940557 TATGGGCTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (20 bp):
ATGCAACTAAATGATCCTAA
Found at i:944510 original size:13 final size:13
Alignment explanation
Indices: 944492--944516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
944482 GTTCTAGCTG
944492 TATTCCCAACATA
1 TATTCCCAACATA
944505 TATTCCCAACAT
1 TATTCCCAACAT
944517 TCAAAATTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (13 bp):
TATTCCCAACATA
Found at i:944641 original size:12 final size:12
Alignment explanation
Indices: 944626--944677 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
944616 TTTGAAAAAG
944626 ACAAGTAAAATA
1 ACAAGTAAAATA
944638 ACAAGTAAAACTA
1 ACAAGTAAAA-TA
944651 TACAAAG-AAAATGA
1 -AC-AAGTAAAAT-A
*
944665 AGAAGTAAAATA
1 ACAAGTAAAATA
944677 A
1 A
944678 AAAATGCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 15 0.44
13 9 0.26
14 7 0.21
15 3 0.09
ACGTcount: A:0.65, C:0.08, G:0.12, T:0.15
Consensus pattern (12 bp):
ACAAGTAAAATA
Found at i:947838 original size:11 final size:11
Alignment explanation
Indices: 947810--947847 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
947800 AATTATTAAA
947810 TATTTA-ATA-
1 TATTTATATAT
947819 TATTATATATAT
1 TATT-TATATAT
947831 TATTTATATAT
1 TATTTATATAT
947842 TATTTA
1 TATTTA
947848 GTATTAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
10 2 0.08
11 16 0.62
12 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTATATAT
Found at i:968292 original size:23 final size:23
Alignment explanation
Indices: 968233--968294 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
968223 TAGTGCAGAG
*
968233 GGAATCGATACACCCC-TTGAAGG
1 GGAATCGATAC-CCCCTTTGAAGA
*
968256 GGAA-CTGATTCCCCCTTTGAAGA
1 GGAATC-GATACCCCCTTTGAAGA
*
968279 TGAATCGATACCCCCT
1 GGAATCGATACCCCCT
968295 GAGGGTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 5 0.16
23 26 0.81
24 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (23 bp):
GGAATCGATACCCCCTTTGAAGA
Found at i:969888 original size:18 final size:17
Alignment explanation
Indices: 969862--969917 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
969852 CTTCGATGAT
* *
969862 GAACCAGAACAGTACGAG
1 GAACAAGAACAGCA-GAG
969880 GAACAAGAACGAGCAGAG
1 GAACAAGAAC-AGCAGAG
*
969898 GAACAAGCACAGCCAGAG
1 GAACAAGAACAG-CAGAG
969916 GA
1 GA
969918 TCAAATGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.85
19 3 0.09
ACGTcount: A:0.46, C:0.21, G:0.30, T:0.02
Consensus pattern (17 bp):
GAACAAGAACAGCAGAG
Found at i:979123 original size:162 final size:162
Alignment explanation
Indices: 978856--979163 Score: 544
Period size: 162 Copynumber: 1.9 Consensus size: 162
978846 AATGGAATGG
* *
978856 TCTAATTAAAGGTATTCTGCTAAAGTAATGGACCAAATATGTAATTGTGAGAGCCCTAACTTTAT
1 TCTAATTAAAGGTATTCTGCTAAAGTAATGGAACAAAGATGTAATTGTGAGAGCCCTAACTTTAT
*
978921 GAATAGGATTACATTCAGATTATGACACTAATGGATCACTCAACAACTGTCGGGATAAAGGCCTT
66 GAATAGGATTACATTCAGATTATGACACTAATGGATCACTCAACAACCGTCGGGATAAAGGCCTT
*
978986 GTGTCGAGATGAATTTTTTGGCTCTTAAATCC
131 GTGTCAAGATGAATTTTTTGGCTCTTAAATCC
* * *
979018 TCTAATTAAAGGTATTTTGTTAAAGTAATGGAACAAAGATGTAATTGTTAGAGCCCTAACTTTAT
1 TCTAATTAAAGGTATTCTGCTAAAGTAATGGAACAAAGATGTAATTGTGAGAGCCCTAACTTTAT
*
979083 GAATAGGATTACATTCAGATTATGACACTAATGGATCACTCGACAACCGTCGGGATAAAGGCCTT
66 GAATAGGATTACATTCAGATTATGACACTAATGGATCACTCAACAACCGTCGGGATAAAGGCCTT
979148 GTGTCAAGATGAATTT
131 GTGTCAAGATGAATTT
979164 CCCAACAAAA
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 138 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (162 bp):
TCTAATTAAAGGTATTCTGCTAAAGTAATGGAACAAAGATGTAATTGTGAGAGCCCTAACTTTAT
GAATAGGATTACATTCAGATTATGACACTAATGGATCACTCAACAACCGTCGGGATAAAGGCCTT
GTGTCAAGATGAATTTTTTGGCTCTTAAATCC
Found at i:982217 original size:9 final size:9
Alignment explanation
Indices: 982197--982225 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
982187 TTATTATTCT
982197 TTTTTATT-
1 TTTTTATTG
982205 TTTTTATTG
1 TTTTTATTG
982214 TTTTTATTG
1 TTTTTATTG
982223 TTT
1 TTT
982226 CGTTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (9 bp):
TTTTTATTG
Found at i:983996 original size:20 final size:20
Alignment explanation
Indices: 983958--983995 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
983948 GATTTTCAAA
983958 AAAGTTTTTATTTTCTTTTC
1 AAAGTTTTTATTTTCTTTTC
983978 AAAGTTTTTA-TTTCTTTT
1 AAAGTTTTTATTTTCTTTT
983996 TAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (20 bp):
AAAGTTTTTATTTTCTTTTC
Found at i:984004 original size:19 final size:20
Alignment explanation
Indices: 983960--984010 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
983950 TTTTCAAAAA
983960 AGTTTTTATTTTCTTTTCAA-
1 AGTTTTTA-TTTCTTTTCAAT
*
983980 AGTTTTTATTTCTTTTTAAT
1 AGTTTTTATTTCTTTTCAAT
**
984000 TTTTTTTATTT
1 AGTTTTTATTT
984011 TTAAAGATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.73
Consensus pattern (20 bp):
AGTTTTTATTTCTTTTCAAT
Found at i:984011 original size:16 final size:17
Alignment explanation
Indices: 983982--984014 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
983972 CTTTTCAAAG
*
983982 TTTTTATTTCTTTTTAA
1 TTTTTATTTATTTTTAA
983999 TTTTT-TTTATTTTTAA
1 TTTTTATTTATTTTTAA
984015 AGATGCTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTATTTATTTTTAA
Found at i:984643 original size:18 final size:18
Alignment explanation
Indices: 984620--984735 Score: 71
Period size: 18 Copynumber: 6.5 Consensus size: 18
984610 CTTTAATTTA
984620 TTTATTTTATCCATATCT
1 TTTATTTTATCCATATCT
* * *
984638 TTTATTTTTATACTTATAT
1 TTTA-TTTTATCCATATCT
* * *
984657 TTTAATTAAT-TA-AT-T
1 TTTATTTTATCCATATCT
* **
984672 AATTATTTTATCTTTATCT
1 -TTTATTTTATCCATATCT
984691 TTTATTTTATTCCA-ATCT
1 TTTATTTTA-TCCATATCT
*
984709 TTTATTTTATTC-TAATCT
1 TTTATTTTATCCAT-ATCT
984727 TTTATTTTA
1 TTTATTTTA
984736 AAAAAATTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
15 1 0.01
16 9 0.12
17 3 0.04
18 44 0.59
19 18 0.24
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTTATCCATATCT
Found at i:989444 original size:11 final size:11
Alignment explanation
Indices: 989430--989454 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
989420 TTATTTTAGG
989430 AATATTTTGTA
1 AATATTTTGTA
989441 AATATTTTGTA
1 AATATTTTGTA
989452 AAT
1 AAT
989455 CTCTTGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (11 bp):
AATATTTTGTA
Found at i:997485 original size:18 final size:18
Alignment explanation
Indices: 997464--997546 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 18
997454 TAATTAATTA
997464 TTTATTTTATCCTTATCT
1 TTTATTTTATCCTTATCT
* **
997482 TTTATTTATTTAATTAAT-T
1 TTTATTT-TATCCTT-ATCT
* *
997501 AATTATTTTATCTTTATCT
1 -TTTATTTTATCCTTATCT
* *
997520 TTTATTTTATTCTAATCT
1 TTTATTTTATCCTTATCT
*
997538 TTTAGTTTA
1 TTTATTTTA
997547 AAAATAATTT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
18 31 0.63
19 10 0.20
20 8 0.16
ACGTcount: A:0.24, C:0.08, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTATTTTATCCTTATCT
Found at i:997494 original size:38 final size:39
Alignment explanation
Indices: 997451--997535 Score: 136
Period size: 38 Copynumber: 2.2 Consensus size: 39
997441 ATTACTTTAA
*
997451 ATTTAATTAATTATTTATTTTATCCTTATCTTTTA-TTT
1 ATTTAATTAATTAATTATTTTATCCTTATCTTTTATTTT
*
997489 ATTTAATTAATTAATTATTTTATCTTTATCTTTTATTTT
1 ATTTAATTAATTAATTATTTTATCCTTATCTTTTATTTT
997528 ATTCTAAT
1 ATT-TAAT
997536 CTTTTAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 33 0.77
39 6 0.14
40 4 0.09
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (39 bp):
ATTTAATTAATTAATTATTTTATCCTTATCTTTTATTTT
Found at i:997930 original size:57 final size:57
Alignment explanation
Indices: 997857--997967 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
997847 TATTGTATGT
* * *
997857 CAAGTGAATACCCAAATACAAATGAAATAATCCAATGTCAAATGCCACAAAATGGGG
1 CAAGTGAATACACAAATACAAATAAAATAAACCAATGTCAAATGCCACAAAATGGGG
*
997914 CAAGTGAATACACAAATACAAATAAAATAAACTAATGTCAAATGCCACAAAATG
1 CAAGTGAATACACAAATACAAATAAAATAAACCAATGTCAAATGCCACAAAATG
997968 AGTCCAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (57 bp):
CAAGTGAATACACAAATACAAATAAAATAAACCAATGTCAAATGCCACAAAATGGGG
Found at i:999183 original size:21 final size:21
Alignment explanation
Indices: 999159--999211 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
999149 AGGTTAAGCT
999159 CTTTCATCAAGAT-GATAAGTC
1 CTTTCATCAA-ATGGATAAGTC
* ** *
999180 CTTTAATTGAATGGTTAAGTC
1 CTTTCATCAAATGGATAAGTC
999201 CTTTCATCAAA
1 CTTTCATCAAA
999212 AGGTCTTAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
CTTTCATCAAATGGATAAGTC
Found at i:1001570 original size:21 final size:21
Alignment explanation
Indices: 1001538--1001625 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
1001528 TAACAATTCT
* *
1001538 CTTTAATGAAAAGATTAAATC
1 CTTTAATAAAAAGATTAAGTC
* * *
1001559 CTTTCATAAAAAGGTTAAGCC
1 CTTTAATAAAAAGATTAAGTC
* *
1001580 CTTTTATCAAAAGGA-TAAGTC
1 CTTTAAT-AAAAAGATTAAGTC
* * *
1001601 CTTTAATAGAAAGGTTAATTC
1 CTTTAATAAAAAGATTAAGTC
1001622 CTTT
1 CTTT
1001626 TATCGAAAGG
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
20 4 0.08
21 42 0.82
22 5 0.10
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (21 bp):
CTTTAATAAAAAGATTAAGTC
Found at i:1001633 original size:21 final size:21
Alignment explanation
Indices: 1001568--1001636 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
1001558 CCTTTCATAA
* *
1001568 AAAGGTTAAGCCCTTTTATCA
1 AAAGGTTAAGTCCTTTTATCG
* * *
1001589 AAAGGATAAGTCCTTTAATAG
1 AAAGGTTAAGTCCTTTTATCG
*
1001610 AAAGGTTAATTCCTTTTATCG
1 AAAGGTTAAGTCCTTTTATCG
1001631 AAAGGT
1 AAAGGT
1001637 CTTAACTCTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
AAAGGTTAAGTCCTTTTATCG
Found at i:1003110 original size:2 final size:2
Alignment explanation
Indices: 1003099--1003562 Score: 85
Period size: 2 Copynumber: 233.0 Consensus size: 2
1003089 TTGAAACAAT
* *
1003099 TA TA -A TA TA TA TA TA CTA TA TA GTT TA TA TT TA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
1003140 TA TA CTA TA TA TA AA T- TA TA TA TA T- TA TG TA TA AA CTA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
1003182 GT- TGA T- TA -A TA TA AA CTA TA TA TA AA CTA TA TA GTG TA TA TA
1 -TA T-A TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * *
1003224 TA AA GTA TA TA TA T- TA TA TA TA AA CTA TG TA TA TA AA T- TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
1003266 TA GTT TA TA TT TA TA T- TA T- TA TA TA CTA TA TA TA AA CTA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
* * * *
1003307 TA TA GTA TG TA TA AA CTA TA TA GTT TA T- TA -A TA TA CA CTA TA
1 TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * * * *
1003349 TA TA AA T- TA AA TA GTT TA T- TA -A TA TA AA T- TA TA TA -A TT
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1003387 TT TA TA TA -A AA TA TA TA TGA -A CTA TA TT TA AA TA TA TA CA -A
1 TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA TA TA
* *
1003428 CT- TA TA TT TA TA TA CTA TA TA -A T- TA TA AA T- TA T- TA TA CTA
1 -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
1003468 TG TA TA AA T- TA TA TA GTT TA AA TA TA -A GTA TGA GTA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA T-A -TA TA TA TA
* *
1003510 AA CTA TA AA T- TA TA TA TA TA TA TA TA -A GTA TA -A GTA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
1003550 T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1003563 AAGTATAAAT
Statistics
Matches: 328, Mismatches: 70, Indels: 128
0.62 0.13 0.24
Matches are distributed among these distances:
1 33 0.10
2 258 0.79
3 36 0.11
4 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1003163 original size:20 final size:20
Alignment explanation
Indices: 1003133--1003536 Score: 111
Period size: 20 Copynumber: 20.0 Consensus size: 20
1003123 TTATATTTAT
1003133 ATTATTATATACTATATATAA
1 ATTA-TATATACTATATATAA
* *
1003154 ATTATATATATTATGTATAA
1 ATTATATATACTATATATAA
* *
1003174 ACTATATAGTTGATTA-ATATAA
1 ATTATATA--T-ACTATATATAA
* *
1003196 ACTATATATA-AACTATAT-A
1 ATTATATATACTA-TATATAA
* * *
1003215 GTGTATATATA-AAGTATATAT
1 AT-TATATATACTA-TATATAA
1003236 ATTATATATAAACTATGTATATAA
1 ATTATATAT--ACTA--TATATAA
* * *
1003260 ATTATATAGT-TTATATTTAT
1 ATTATATA-TACTATATATAA
1003280 ATTATTATATACTATATATAA
1 ATTA-TATATACTATATATAA
* * *
1003301 ACTATATATAGTATGTATAA
1 ATTATATATACTATATATAA
*
1003321 ACTATATAGT--T-TAT-T--
1 ATTATATA-TACTATATATAA
*
1003336 A--ATATACACTATATATAA
1 ATTATATATACTATATATAA
* *
1003354 ATTAAATAGT-TTATTAATATAA
1 ATTATATA-TACTA-T-ATATAA
* *
1003376 ATTATATA-ATTTTTATATAA
1 ATTATATATA-CTATATATAA
* *
1003396 AATATATATGAACTATATTTAA
1 ATTATATAT--ACTATATATAA
*
1003418 A-TATATACAACT-TATAT--
1 ATTATATA-TACTATATATAA
1003435 -TTATATACTA-TATAATTATAA
1 ATTATATA-TACTAT-A-TATAA
*
1003456 ATTAT-TATACTATGTATAA
1 ATTATATATACTATATATAA
* *
1003475 ATTATATAGT-TTAAATATAA
1 ATTATATA-TACTATATATAA
* *
1003495 GTATGAGTATATA-TAAACTATAA
1 --ATTA-TATATACTATA-TATAA
1003518 ATTATATATA-TATATATAA
1 ATTATATATACTATATATAA
1003537 GTATAAGTAT
Statistics
Matches: 294, Mismatches: 42, Indels: 96
0.68 0.10 0.22
Matches are distributed among these distances:
13 5 0.02
14 1 0.00
15 4 0.01
16 2 0.01
17 10 0.03
18 5 0.02
19 25 0.09
20 122 0.41
21 37 0.13
22 52 0.18
23 15 0.05
24 15 0.05
25 1 0.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (20 bp):
ATTATATATACTATATATAA
Found at i:1003206 original size:33 final size:31
Alignment explanation
Indices: 1003104--1003236 Score: 101
Period size: 31 Copynumber: 4.3 Consensus size: 31
1003094 ACAATTATAA
* * * * *
1003104 TATATATATACTATATAGTTTATATTTATAT
1 TATATATAAACTATATAGTGTATATATAAAC
* ** * *
1003135 TAT-TATATACTATATA-TAAATTATATATAT
1 TATATATAAACTATATAGTGTA-TATATAAAC
*
1003165 TATGTATAAACTATATAGT-TGATTAATATAAAC
1 TATATATAAACTATATAGTGT-A-T-ATATAAAC
*
1003198 TATATATAAACTATATAGTGTATATATAAAG
1 TATATATAAACTATATAGTGTATATATAAAC
1003229 TATATATA
1 TATATATA
1003237 TTATATATAA
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
29 2 0.02
30 24 0.28
31 30 0.34
32 5 0.06
33 25 0.29
34 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (31 bp):
TATATATAAACTATATAGTGTATATATAAAC
Found at i:1003213 original size:53 final size:51
Alignment explanation
Indices: 1003130--1003354 Score: 219
Period size: 53 Copynumber: 4.5 Consensus size: 51
1003120 AGTTTATATT
* *
1003130 TATATTATT-ATAT--ACTATATATAAATTATATATATTATGTATAAACTA
1 TATATTATTAATATAAACTATATATAAACTATATATAGTATGTATAAACTA
* *
1003178 TATAGTTGATTAATATAAACTATATATAAACTATATAGT-GTATATATAAAGTA
1 TATA-TT-ATTAATATAAACTATATATAAACTATATA-TAGTATGTATAAACTA
*
1003231 TATA-TATTATATATAAACTATGTATATAAA-T-TATATAGT-T-TAT--A-TT
1 TATATTATTA-ATATAAACTA--TATATAAACTATATATAGTATGTATAAACTA
1003277 TATATTATT-ATAT--ACTATATATAAACTATATATAGTATGTATAAACTA
1 TATATTATTAATATAAACTATATATAAACTATATATAGTATGTATAAACTA
*
1003325 TATAGTTTATTAATATACACTATATATAAA
1 TATA--TTATTAATATAAACTATATATAAA
1003355 TTAAATAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 41
0.76 0.03 0.21
Matches are distributed among these distances:
41 8 0.05
42 1 0.01
43 12 0.08
44 1 0.01
45 7 0.05
46 5 0.03
47 6 0.04
48 9 0.06
49 5 0.03
50 14 0.09
51 25 0.17
52 1 0.01
53 53 0.36
54 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (51 bp):
TATATTATTAATATAAACTATATATAAACTATATATAGTATGTATAAACTA
Found at i:1003316 original size:147 final size:149
Alignment explanation
Indices: 1003106--1003413 Score: 455
Period size: 147 Copynumber: 2.1 Consensus size: 149
1003096 AATTATAATA
* * *
1003106 TATATATACTATATAGTTTATATTTATATTATTATATACTATATATAAATTATATATATTATGTA
1 TATATAAACTATATAGTTTATATTTATATTATTATATACTATATATAAACTATATATAGTATGTA
*
1003171 TAAACTATATAGTTGATTAATATAAACTATATATAAACTATATAGTGTA-T-ATATAAAGTATAT
66 TAAACTATATAGTTGATTAATATAAACTATATATAAACTAAATAGTGTATTAATATAAAGTATAT
1003234 -ATATTATATATAAACTATG
131 AAT-TTATATATAAACTATG
*
1003253 TATATAAATTATATAGTTTATATTTATATTATTATATACTATATATAAACTATATATAGTATGTA
1 TATATAAACTATATAGTTTATATTTATATTATTATATACTATATATAAACTATATATAGTATGTA
* * * * *
1003318 TAAACTATATAGTTTATTAATATACACTATATATAAATTAAATAGTTTATTAATATAAATTATAT
66 TAAACTATATAGTTGATTAATATAAACTATATATAAACTAAATAGTGTATTAATATAAAGTATAT
* *
1003383 AATTTTTATATAAA--ATA
131 AATTTATATATAAACTATG
*
1003400 TATATGAACTATAT
1 TATATAAACTATAT
1003414 TTAAATATAT
Statistics
Matches: 144, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
147 119 0.83
148 1 0.01
149 22 0.15
150 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (149 bp):
TATATAAACTATATAGTTTATATTTATATTATTATATACTATATATAAACTATATATAGTATGTA
TAAACTATATAGTTGATTAATATAAACTATATATAAACTAAATAGTGTATTAATATAAAGTATAT
AATTTATATATAAACTATG
Found at i:1003320 original size:94 final size:94
Alignment explanation
Indices: 1003186--1003367 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 94
1003176 TATATAGTTG
*
1003186 ATTAATATAAACTATATATAAACTATATAGTGTATATATAAAGTATATA---TATTATATATAAA
1 ATTAATATAAACTATATATAAACTATATAGTGTATATATAAACTATATAGTTTATTA-ATATAAA
*
1003248 CTATGTATATAAATTATATAGTTTATATTTAT
65 CTA--TATATAAATTAAATAGTTTATATTTAT
* * * *
1003280 ATTATTATATACTATATATAAACTATATA-TAGTATGTATAAACTATATAGTTTATTAATATACA
1 ATTAATATAAACTATATATAAACTATATAGT-GTATATATAAACTATATAGTTTATTAATATAAA
1003344 CTATATATAAATTAAATAGTTTAT
65 CTATATATAAATTAAATAGTTTAT
1003368 TAATATAAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
93 1 0.01
94 63 0.81
96 9 0.12
97 5 0.06
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (94 bp):
ATTAATATAAACTATATATAAACTATATAGTGTATATATAAACTATATAGTTTATTAATATAAAC
TATATATAAATTAAATAGTTTATATTTAT
Found at i:1003353 original size:33 final size:33
Alignment explanation
Indices: 1003316--1003383 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
1003306 ATATAGTATG
* *
1003316 TATAAACTATATAGTTTATTAATATACACTATA
1 TATAAACTAAATAGTTTATTAATATAAACTATA
* *
1003349 TATAAATTAAATAGTTTATTAATATAAATTATA
1 TATAAACTAAATAGTTTATTAATATAAACTATA
1003382 TA
1 TA
1003384 ATTTTTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (33 bp):
TATAAACTAAATAGTTTATTAATATAAACTATA
Found at i:1003421 original size:21 final size:22
Alignment explanation
Indices: 1003395--1003454 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
1003385 TTTTTATATA
*
1003395 AAATATATATGAAC-TATATTT
1 AAATATATATCAACTTATATTT
1003416 AAATATATA-CAACTTATATTT
1 AAATATATATCAACTTATATTT
*
1003437 ATATACTATAT-AA-TTATA
1 AAATA-TATATCAACTTATA
1003455 AATTATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 3 0.09
21 25 0.74
22 6 0.18
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (22 bp):
AAATATATATCAACTTATATTT
Found at i:1003575 original size:42 final size:42
Alignment explanation
Indices: 1003489--1003575 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
1003479 TATAGTTTAA
* * *
1003489 ATATAAGTATGAGTATATATAAACTATAAATTATATATATAT
1 ATATAAGTATAAGTATATATAAACTATAAATTAAATATAAAT
* *
1003531 ATATAAGTATAAGTATATAT-TA-TATATATATAAAGTATAAAT
1 ATATAAGTATAAGTATATATAAACTATAAAT-TAAA-TATAAAT
1003573 ATA
1 ATA
1003576 AAGACTAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
40 6 0.16
41 4 0.11
42 28 0.74
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (42 bp):
ATATAAGTATAAGTATATATAAACTATAAATTAAATATAAAT
Found at i:1003584 original size:13 final size:13
Alignment explanation
Indices: 1003469--1003578 Score: 55
Period size: 13 Copynumber: 8.1 Consensus size: 13
1003459 ATTATACTAT
*
1003469 GTATAAATTATATA
1 GTATAAA-TATAAA
*
1003483 GTTTAAATAT-AA
1 GTATAAATATAAA
1003495 GTATGAGTATATATAAA
1 GTAT-A--A-ATATAAA
* *
1003512 CTATAAAT-TATA
1 GTATAAATATAAA
*
1003524 -TATATATATATAA
1 GTATAAATATA-AA
* *
1003537 GTATAAGTATATA
1 GTATAAATATAAA
*
1003550 TTATATATATATAAA
1 GTATA-A-ATATAAA
1003565 GTATAAATATAAA
1 GTATAAATATAAA
1003578 G
1 G
1003579 ACTAAAGTAC
Statistics
Matches: 72, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
11 6 0.08
12 9 0.12
13 20 0.28
14 17 0.24
15 10 0.14
16 5 0.07
17 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (13 bp):
GTATAAATATAAA
Found at i:1003797 original size:17 final size:16
Alignment explanation
Indices: 1003775--1003825 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
1003765 CCGCCCCTGC
1003775 TAAAGTATATAAGTATA
1 TAAAGT-TATAAGTATA
**
1003792 TAAAGTGTATAAACATA
1 TAAAGT-TATAAGTATA
1003809 TAAAG-TATAAGTATA
1 TAAAGTTATAAGTATA
1003824 TA
1 TA
1003826 TATATAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 10 0.34
17 19 0.66
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (16 bp):
TAAAGTTATAAGTATA
Found at i:1003802 original size:9 final size:9
Alignment explanation
Indices: 1003775--1003817 Score: 54
Period size: 8 Copynumber: 5.0 Consensus size: 9
1003765 CCGCCCCTGC
1003775 TAAAGTATA
1 TAAAGTATA
1003784 T-AAGTATA
1 TAAAGTATA
*
1003792 TAAAGTGTA
1 TAAAGTATA
*
1003801 TAAA-CATA
1 TAAAGTATA
1003809 TAAAGTATA
1 TAAAGTATA
1003818 AGTATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (9 bp):
TAAAGTATA
Found at i:1003827 original size:2 final size:2
Alignment explanation
Indices: 1003820--1003914 Score: 63
Period size: 2 Copynumber: 47.0 Consensus size: 2
1003810 AAAGTATAAG
* * *
1003820 TA TA TA TA TA TA -A TA TA AA CTA TA TA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA
* *
1003862 TA TA TT TA TA T- TA T- TA TA TA CTA TA TA TA TA TA T- TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
1003902 TA AA CTA TA TA TA
1 TA TA -TA TA TA TA
1003915 CCATGTATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 18
0.71 0.12 0.18
Matches are distributed among these distances:
1 4 0.06
2 62 0.86
3 6 0.08
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1003920 original size:20 final size:20
Alignment explanation
Indices: 1003887--1003925 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1003877 ATATACTATA
**
1003887 TATATATATTATGTATAAAC
1 TATATATACCATGTATAAAC
1003907 TATATATACCATGTATAAA
1 TATATATACCATGTATAAA
1003926 AGAGTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (20 bp):
TATATATACCATGTATAAAC
Found at i:1004002 original size:20 final size:22
Alignment explanation
Indices: 1003952--1003993 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1003942 CTATTGAACT
*
1003952 ATATAAATTATGTAGTTTATTA
1 ATATAAATTATATAGTTTATTA
1003974 ATATAAATTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
1003994 ATGTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
ATATAAATTATATAGTTTATTA
Found at i:1004054 original size:17 final size:17
Alignment explanation
Indices: 1004034--1004087 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
1004024 ATATACAACT
* * *
1004034 TATATTTATATATTATG
1 TATAATTATAAATTATA
1004051 TATAATTATAAATTATA
1 TATAATTATAAATTATA
1004068 TATACTATGTATAAATTATA
1 TATA--AT-TATAAATTATA
1004088 CAGTTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 18 0.58
19 2 0.06
20 11 0.35
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
TATAATTATAAATTATA
Found at i:1004146 original size:27 final size:27
Alignment explanation
Indices: 1004116--1004173 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
1004106 TATAAGTATA
*
1004116 TATATTATTATATATGTACT-TATACTT
1 TATATTATTATATATGTA-TATATAATT
1004143 TATATTATTATATATGTATATATAATT
1 TATATTATTATATATGTATATATAATT
1004170 TATA
1 TATA
1004174 CTAAAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (27 bp):
TATATTATTATATATGTATATATAATT
Found at i:1004259 original size:8 final size:8
Alignment explanation
Indices: 1004208--1004690 Score: 129
Period size: 8 Copynumber: 62.2 Consensus size: 8
1004198 CTTATAGTTT
1004208 TTATATA-
1 TTATATAC
1004215 TATATATA-
1 T-TATATAC
*
1004223 TATATATGC
1 T-TATATAC
1004232 TTATATAC
1 TTATATAC
*
1004240 TT-TACA-
1 TTATATAC
1004246 TTATATAC
1 TTATATAC
1004254 TTATATAC
1 TTATATAC
1004262 TTTATATTA-
1 -TTATA-TAC
1004271 TTATATAC
1 TTATATAC
*
1004279 ATATATAC
1 TTATATAC
*
1004287 TT-TATAT
1 TTATATAC
1004294 TTATATAC
1 TTATATAC
1004302 TTATATAC
1 TTATATAC
1004310 TT-TAGT-C
1 TTATA-TAC
*
1004317 TT-TATAA
1 TTATATAC
**
1004324 TTATACTTT
1 TTATA-TAC
1004333 TTATATA-
1 TTATATAC
1004340 TATAATATAC
1 T-T-ATATAC
*
1004350 TTGTACTTGTAC
1 -T-TA--TATAC
*
1004362 TT-TATATG
1 TTATATA-C
*
1004370 TATATATATT
1 T-TATATA-C
1004380 TTATATAC
1 TTATATAC
1004388 TTATATAC
1 TTATATAC
*
1004396 TT-TGTA-
1 TTATATAC
*
1004402 TTATTTAC
1 TTATATAC
1004410 TTATATA-
1 TTATATAC
*
1004417 TTTTAGT-C
1 TTATA-TAC
1004425 TT-TATA-
1 TTATATAC
*
1004431 AT-TATAC
1 TTATATAC
1004438 TTTATATA-
1 -TTATATAC
1004446 TATAATATAC
1 T-T-ATATAC
1004456 -T-TATAC
1 TTATATAC
1004462 -T-TATAC
1 TTATATAC
*
1004468 TTTATATTAA
1 -TTATA-TAC
*
1004478 TTGTATA-
1 TTATATAC
1004485 TATATATA-
1 T-TATATAC
1004493 TGTATATAC
1 T-TATATAC
1004502 TT-TATAC
1 TTATATAC
*
1004509 -TA-AAAC
1 TTATATAC
1004515 TT-TATA-
1 TTATATAC
1004521 TATATATA-
1 T-TATATAC
*
1004529 TATATACAC
1 T-TATATAC
*
1004538 TT-TATAG
1 TTATATAC
1004545 TT-TATA-
1 TTATATAC
1004551 -TATATAC
1 TTATATAC
1004558 TTATATAC
1 TTATATAC
*
1004566 TT-TATAT
1 TTATATAC
1004573 TTA-ATAC
1 TTATATAC
1004580 TTATATAC
1 TTATATAC
1004588 -T-TATAC
1 TTATATAC
1004594 TTA-ATAC
1 TTATATAC
*
1004601 CTATATAC
1 TTATATAC
1004609 GTTATATTA-
1 -TTATA-TAC
1004618 TTATATAC
1 TTATATAC
*
1004626 ATATATACAC
1 -T-TATATAC
1004636 TT-TATA-
1 TTATATAC
* * **
1004642 ATAAAGCC
1 TTATATAC
1004650 TTATATA-
1 TTATATAC
1004657 -TATATAC
1 TTATATAC
1004664 TTTATATAC
1 -TTATATAC
*
1004673 TTGTATAC
1 TTATATAC
*
1004681 TTGTATAC
1 TTATATAC
1004689 TT
1 TT
1004691 TAGTTTTTAT
Statistics
Matches: 366, Mismatches: 48, Indels: 123
0.68 0.09 0.23
Matches are distributed among these distances:
5 1 0.00
6 43 0.12
7 86 0.23
8 155 0.42
9 54 0.15
10 20 0.05
11 3 0.01
12 4 0.01
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (8 bp):
TTATATAC
Found at i:1004283 original size:25 final size:24
Alignment explanation
Indices: 1004208--1004765 Score: 193
Period size: 22 Copynumber: 23.6 Consensus size: 24
1004198 CTTATAGTTT
* *
1004208 TTATATA-TATATATATATATATGC
1 TTATATACTTTATATAT-TATATAC
*
1004232 TTATATAC-TT-TACATTATATAC
1 TTATATACTTTATATATTATATAC
1004254 TTATATACTTTATATTATTATATAC
1 TTATATACTTTATA-TATTATATAC
*
1004279 ATATATACTTTATAT-TTATATAC
1 TTATATACTTTATATATTATATAC
*
1004302 TTATATACTTTAGTCT-TTATA-A-
1 TTATATACTTTA-TATATTATATAC
*
1004324 TTATACT-TTTTATATATATAATATAC
1 TTATA-TACTTTATATAT-T-ATATAC
* * *
1004350 TTGTACTTGTACTTTATATGTATATATATT
1 -T-TA--TATACTTTATATAT-TATATA-C
*
1004380 TTATATAC-TTATATACTT-TGTA-
1 TTATATACTTTATATA-TTATATAC
* *
1004402 TTATTTAC-TTATATATTTTAGT-C
1 TTATATACTTTATATATTATA-TAC
*
1004425 TT-TATA-ATTATACT-TTATATA-
1 TTATATACTTTATA-TATTATATAC
*
1004446 TATAATATAC--T-TATACT-TATAC
1 T-T-ATATACTTTATATATTATATAC
*
1004468 TTTATATTAATTGTATATA-TATATA-
1 -TTATA-TACTT-TATATATTATATAC
1004493 TGTATATACTTTATACTA--A-A-AC
1 T-TATATACTTTATA-TATTATATAC
* *
1004515 TT-TATA-TATATATATATATACAC
1 TTATATACTTTATATAT-TATATAC
*
1004538 TT-TATA-GTT-TATA-TATATAC
1 TTATATACTTTATATATTATATAC
1004558 TTATATACTTTATAT-TTA-ATAC
1 TTATATACTTTATATATTATATAC
*
1004580 TTATATAC-TTATA-CTTA-ATAC
1 TTATATACTTTATATATTATATAC
* *
1004601 CTATATACGTTATATTATTATATAC
1 TTATATACTTTATA-TATTATATAC
*
1004626 ATATATACACTTTATAATAAAGCCTTATATA-
1 -T-TATATACTTTAT-AT--A---TTATATAC
*
1004657 -TATATACTTTATATACTTGTATAC
1 TTATATACTTTATATA-TTATATAC
*
1004681 TTGTATACTTTAGT-T-TT-TATA-
1 TTATATACTTTA-TATATTATATAC
* *
1004702 AT-TATACTTTATATATATAATGTAC
1 TTATATACTTTATATAT-T-ATATAC
*
1004727 -T-TATACTTTATATTATTATATATG
1 TTATATACTTTATA-TATTATATA-C
1004751 TATATATACTTTATA
1 T-TATATACTTTATA
1004766 CTAAAACTTT
Statistics
Matches: 418, Mismatches: 40, Indels: 149
0.69 0.07 0.25
Matches are distributed among these distances:
18 2 0.00
19 6 0.01
20 22 0.05
21 42 0.10
22 89 0.21
23 66 0.16
24 54 0.13
25 55 0.13
26 15 0.04
27 25 0.06
28 16 0.04
29 8 0.02
30 11 0.03
32 7 0.02
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (24 bp):
TTATATACTTTATATATTATATAC
Found at i:1004492 original size:106 final size:108
Alignment explanation
Indices: 1004264--1004507 Score: 336
Period size: 106 Copynumber: 2.3 Consensus size: 108
1004254 TTATATACTT
*
1004264 TATATTATTATATACATATATACTTTATATTTATATACTTATATACTTTAGTCTTTATAATTATA
1 TATATTA-TATATACTTATATACTTTATATTTATATACTTATATACTTTAGTCTTTATAATTATA
* *
1004329 CTTTTTATATATATAATATACTTGTACTTGTACTTTATATGTATA
65 C-TTTTATATATATAATATACTTATACTTATACTTTATATGTATA
* * * *
1004374 TATATTTTATATACTTATATACTTTGTA-TTATTTACTTATATATTTTAGTCTTTATAATTATAC
1 TATATTATATATACTTATATACTTTATATTTATATACTTATATACTTTAGTCTTTATAATTATAC
1004438 -TTTATATATATAATATACTTATACTTATACTTTATAT-TA-A
66 TTTTATATATATAATATACTTATACTTATACTTTATATGTATA
*
1004478 TTGTATATATATATA-TGTATATACTTTATA
1 -TATAT-TATATATACT-TATATACTTTATA
1004508 CTAAAACTTT
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
104 1 0.01
105 7 0.06
106 54 0.45
108 34 0.28
109 19 0.16
110 6 0.05
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (108 bp):
TATATTATATATACTTATATACTTTATATTTATATACTTATATACTTTAGTCTTTATAATTATAC
TTTTATATATATAATATACTTATACTTATACTTTATATGTATA
Found at i:1004501 original size:34 final size:32
Alignment explanation
Indices: 1004463--1004573 Score: 104
Period size: 30 Copynumber: 3.4 Consensus size: 32
1004453 TACTTATACT
1004463 TATACTTTATATTAATTGTATATATATATATGTA
1 TATACTTTATATTAATT-TATATATATATAT-TA
*
1004497 TATACTTTATACTAAAACTTTATATATATATA-TA
1 TATACTTTATA-T-TAA-TTTATATATATATATTA
* * *
1004531 TATACACTT-TA-TAGTTTATATATATA-CTTA
1 TATAC-TTTATATTAATTTATATATATATATTA
1004561 TATACTTTATATT
1 TATACTTTATATT
1004574 TAATACTTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
29 2 0.03
30 21 0.33
31 2 0.03
34 20 0.31
35 3 0.05
36 14 0.22
37 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (32 bp):
TATACTTTATATTAATTTATATATATATATTA
Found at i:1004585 original size:30 final size:28
Alignment explanation
Indices: 1004519--1004593 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 28
1004509 TAAAACTTTA
1004519 TATATATATA-TATATACACTTTATAGTT
1 TATATATATACT-TATACACTTTATAGTT
*
1004547 TATATATATACTTATATACTTTATA-TT
1 TATATATATACTTATACACTTTATAGTT
1004574 TAATACTTATATACTTATAC
1 T-ATA--TATATACTTATAC
1004594 TTAATACCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 3 0.07
28 25 0.61
29 1 0.02
30 12 0.29
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (28 bp):
TATATATATACTTATACACTTTATAGTT
Found at i:1004591 original size:21 final size:22
Alignment explanation
Indices: 1004546--1004616 Score: 92
Period size: 21 Copynumber: 3.3 Consensus size: 22
1004536 ACTTTATAGT
* *
1004546 TTATATAT-ATACTTATATACT
1 TTATATTTAATACTTATATACG
1004567 TTATATTTAATACTTATATAC-
1 TTATATTTAATACTTATATACG
* *
1004588 TTATACTTAATACCTATATACG
1 TTATATTTAATACTTATATACG
1004610 TTATATT
1 TTATATT
1004617 ATTATATACA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 26 0.59
22 18 0.41
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.51
Consensus pattern (22 bp):
TTATATTTAATACTTATATACG
Found at i:1004785 original size:2 final size:2
Alignment explanation
Indices: 1004778--1004825 Score: 64
Period size: 2 Copynumber: 24.5 Consensus size: 2
1004768 AAAACTTTAA
*
1004778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT AT AT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
1004819 AT AT AT A
1 AT AT AT A
1004826 AAGTTTTAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.93
3 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:1005096 original size:2 final size:2
Alignment explanation
Indices: 1005091--1005119 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1005081 TTTTATACTA
1005091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1005120 GTTATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1005561 original size:24 final size:24
Alignment explanation
Indices: 1005516--1005561 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1005506 TTTAGTCCAT
*
1005516 TTTTATATTAATATCAGCTTCACA
1 TTTTATATTAATATCAACTTCACA
*
1005540 TTTTATAATTAAT-TCAATTTCA
1 TTTTAT-ATTAATATCAACTTCA
1005562 TCCCTCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTATATTAATATCAACTTCACA
Found at i:1005673 original size:2 final size:2
Alignment explanation
Indices: 1005661--1005734 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
1005651 AAGTATAAAG
*
1005661 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1005703 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1005735 AAGTATAATG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1005811 original size:4 final size:4
Alignment explanation
Indices: 1005802--1005845 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
1005792 ATTATATGTG
*
1005802 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAAA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1005846 TATATATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:1006353 original size:22 final size:22
Alignment explanation
Indices: 1006328--1006466 Score: 98
Period size: 22 Copynumber: 6.5 Consensus size: 22
1006318 AACTGTTTGG
1006328 ATATAAGTATTAAAGTATATAA
1 ATATAAGTATTAAAGTATATAA
1006350 ATATAAGTATTAAA-TATA-AA
1 ATATAAGTATTAAAGTATATAA
* *
1006370 GTATATAAGTACTAAAGTATAT-G
1 --ATATAAGTATTAAAGTATATAA
* *
1006393 ATATAAAGTATTAAACTGTAT-A
1 ATAT-AAGTATTAAAGTATATAA
* *
1006415 ATGTAAGCATTAAA-TATA-AA
1 ATATAAGTATTAAAGTATATAA
*
1006435 GTATATAAATA-T-AAGTAT-TAA
1 --ATATAAGTATTAAAGTATATAA
1006456 ATATAAAGTAT
1 ATAT-AAGTAT
1006467 ATTAATAATC
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
19 4 0.04
20 12 0.13
21 23 0.25
22 49 0.53
23 4 0.04
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (22 bp):
ATATAAGTATTAAAGTATATAA
Found at i:1006397 original size:30 final size:28
Alignment explanation
Indices: 1006338--1006473 Score: 132
Period size: 28 Copynumber: 4.5 Consensus size: 28
1006328 ATATAAGTAT
1006338 TAAAGTATATAAATATAAGTATTAAATA
1 TAAAGTATATAAATATAAGTATTAAATA
* *
1006366 TAAAGTATATAAGTACTAAAGTA-TATGATA
1 TAAAGTATATAAATA-T-AAGTATTA-AATA
1006396 TAAAGTAT-TAAACTGTATAATGTAAGCATTAAATA
1 TAAAGTATATAAA---TATAA-GT----ATTAAATA
1006431 TAAAGTATATAAATATAAGTATTAAATA
1 TAAAGTATATAAATATAAGTATTAAATA
*
1006459 TAAAGTATATTAATA
1 TAAAGTATATAAATA
1006474 ATCATAATTA
Statistics
Matches: 90, Mismatches: 5, Indels: 26
0.74 0.04 0.21
Matches are distributed among these distances:
28 36 0.40
29 6 0.07
30 18 0.20
31 3 0.03
32 4 0.04
33 5 0.06
35 12 0.13
36 6 0.07
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (28 bp):
TAAAGTATATAAATATAAGTATTAAATA
Found at i:1006486 original size:28 final size:28
Alignment explanation
Indices: 1006413--1006499 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
1006403 TTAAACTGTA
* *
1006413 TAATGTAAGCATTAAATATAAAGTATAT
1 TAATATAAGTATTAAATATAAAGTATAT
*
1006441 AAATATAAGTATTAAATATAAAGTATAT
1 TAATATAAGTATTAAATATAAAGTATAT
* *
1006469 TAATAATCA-TAATTAATATATTAAGTATAT
1 TAAT-ATAAGT-ATTAA-ATATAAAGTATAT
1006499 T
1 T
1006500 TATTAATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 29 0.58
29 8 0.16
30 13 0.26
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (28 bp):
TAATATAAGTATTAAATATAAAGTATAT
Found at i:1006860 original size:15 final size:15
Alignment explanation
Indices: 1006822--1006861 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1006812 TCAAGTCGGG
*
1006822 TTCAAATCCACAATT
1 TTCAAGTCCACAATT
* *
1006837 TCCAGGTCCACAATT
1 TTCAAGTCCACAATT
1006852 TTCAAGTCCA
1 TTCAAGTCCA
1006862 ACTCGGGTTC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (15 bp):
TTCAAGTCCACAATT
Found at i:1008552 original size:2 final size:2
Alignment explanation
Indices: 1008547--1008573 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1008537 TTTTTTAATT
1008547 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1008574 TAAAATTGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1011741 original size:17 final size:18
Alignment explanation
Indices: 1011708--1011741 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1011698 AAATTCATAC
*
1011708 TTTTATTATTTACTTTGA
1 TTTTATTATTTAATTTGA
1011726 TTTTATT-TTTAATTTG
1 TTTTATTATTTAATTTG
1011742 TTATTTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTATTATTTAATTTGA
Found at i:1012005 original size:80 final size:81
Alignment explanation
Indices: 1011865--1012028 Score: 312
Period size: 80 Copynumber: 2.0 Consensus size: 81
1011855 TCGACCTCTA
1011865 TTAAAATCTAGTTATGACTTCGTCCCTGCATATACACAAAATCAATACCATCTCAAAACATTATA
1 TTAAAATCTAGTTATGACTTCGTCCCTGCATATACACAAAATCAATACCATCTCAAAACATTATA
1011930 ATTTAATCCTTTATTT
66 ATTTAATCCTTTATTT
*
1011946 TTAAAA-CTAGTTCTGACTTCGTCCCTGCATATACACAAAATCAATACCATCTCAAAACATTATA
1 TTAAAATCTAGTTATGACTTCGTCCCTGCATATACACAAAATCAATACCATCTCAAAACATTATA
1012010 ATTTAATCCTTTATTT
66 ATTTAATCCTTTATTT
1012026 TTA
1 TTA
1012029 GAATATAAAC
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
80 76 0.93
81 6 0.07
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (81 bp):
TTAAAATCTAGTTATGACTTCGTCCCTGCATATACACAAAATCAATACCATCTCAAAACATTATA
ATTTAATCCTTTATTT
Found at i:1013081 original size:32 final size:32
Alignment explanation
Indices: 1013045--1013121 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
1013035 CGGGGCCACG
* *
1013045 GGGCCTACCTAAGAAAACATCTTAGGGCCGTA
1 GGGCCTACCTAAGAAAACATCTCAGGGCCGCA
** **
1013077 GGGCCTACCCGAG-AATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAAACATCTCAGGGCCGCA
*
1013108 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
1013122 GTCACATTAG
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 24 0.69
32 11 0.31
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (32 bp):
GGGCCTACCTAAGAAAACATCTCAGGGCCGCA
Found at i:1016009 original size:22 final size:23
Alignment explanation
Indices: 1015979--1016026 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1015969 CACATTATGT
*
1015979 AAATATTTAC-CAAATAAACACCC
1 AAATATTTACAAAAAT-AACACCC
1016002 AAAT-TTTACAAAAATAACACCC
1 AAATATTTACAAAAATAACACCC
1016024 AAA
1 AAA
1016027 CAGAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATATTTACAAAAATAACACCC
Found at i:1018835 original size:20 final size:20
Alignment explanation
Indices: 1018807--1018845 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1018797 TCAAATCGAA
1018807 CTGAATCAACCCGAACCAGC
1 CTGAATCAACCCGAACCAGC
* *
1018827 CTGAGTCAACTCGAACCAG
1 CTGAATCAACCCGAACCAG
1018846 TTTGACCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.36, G:0.18, T:0.13
Consensus pattern (20 bp):
CTGAATCAACCCGAACCAGC
Found at i:1023031 original size:22 final size:22
Alignment explanation
Indices: 1022956--1023031 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
1022946 CGATCAAATC
*
1022956 GGCTCGGTC-GACTCGGTTCAGAC
1 GGCTCGGTCAG-CTCGG-TCAGAT
* * *
1022979 GGCTCAGTCAGCTCGGTTAGGT
1 GGCTCGGTCAGCTCGGTCAGAT
*
1023001 GGCTTGGTCAGCTCGGTCAGAT
1 GGCTCGGTCAGCTCGGTCAGAT
*
1023023 GACTCGGTC
1 GGCTCGGTC
1023032 GTCTCAGTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
22 28 0.67
23 13 0.31
24 1 0.02
ACGTcount: A:0.13, C:0.26, G:0.36, T:0.25
Consensus pattern (22 bp):
GGCTCGGTCAGCTCGGTCAGAT
Found at i:1035669 original size:17 final size:17
Alignment explanation
Indices: 1035649--1035685 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
1035639 AAATGTTTTC
1035649 CAATGACATGATTAACT
1 CAATGACATGATTAACT
1035666 CAATGACATGATTAACT
1 CAATGACATGATTAACT
1035683 CAA
1 CAA
1035686 AGATCAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (17 bp):
CAATGACATGATTAACT
Found at i:1037285 original size:20 final size:20
Alignment explanation
Indices: 1037256--1037294 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1037246 GCTCAAATTA
* *
1037256 TTAAATATATCAAATTATAC
1 TTAAAAATATAAAATTATAC
1037276 TTAAAAATATAAAATTATA
1 TTAAAAATATAAAATTATA
1037295 TGATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAAATATAAAATTATAC
Found at i:1037316 original size:29 final size:27
Alignment explanation
Indices: 1037276--1037341 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 27
1037266 CAAATTATAC
1037276 TTAAAAATATAAAATTATATGATTA-AA
1 TTAAAAATATAAAATT-TATGATTAGAA
*
1037303 TTAAAAAGTGATAAAATTTATTATTAGAA
1 TTAAAAA-T-ATAAAATTTATGATTAGAA
*
1037332 ATAAAAATAT
1 TTAAAAATAT
1037342 TTAAAACATC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 9 0.26
29 16 0.47
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (27 bp):
TTAAAAATATAAAATTTATGATTAGAA
Found at i:1040911 original size:36 final size:36
Alignment explanation
Indices: 1040859--1040930 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
1040849 CGACGAAGCT
*
1040859 TCCGATTGAGTTTTATGGCGAACGGCGTCGATTCAC
1 TCCGATTGAGTTTTATGGCGAACAGCGTCGATTCAC
*
1040895 TCCGGTTGAGTTTTATGGCGAACAGCGTCGATTCAC
1 TCCGATTGAGTTTTATGGCGAACAGCGTCGATTCAC
1040931 GACGGGATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (36 bp):
TCCGATTGAGTTTTATGGCGAACAGCGTCGATTCAC
Found at i:1042687 original size:17 final size:18
Alignment explanation
Indices: 1042652--1042689 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1042642 TTTTAAACTT
* *
1042652 TTACTTTAATTATTTTAA
1 TTACTTAAATTATTATAA
1042670 TTACTTAAATT-TTATAA
1 TTACTTAAATTATTATAA
1042687 TTA
1 TTA
1042690 ATATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
TTACTTAAATTATTATAA
Found at i:1044803 original size:20 final size:21
Alignment explanation
Indices: 1044778--1044817 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1044768 TGTTTACTGT
1044778 TGAATG-GAACCATTCAGCGC
1 TGAATGCGAACCATTCAGCGC
*
1044798 TGAATGCTGAACCGTTCAGC
1 TGAATGC-GAACCATTCAGC
1044818 ATTCAGCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (21 bp):
TGAATGCGAACCATTCAGCGC
Found at i:1045383 original size:2 final size:2
Alignment explanation
Indices: 1045376--1045417 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1045366 AAATAATGAG
1045376 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1045418 TAAAAGAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1046467 original size:3 final size:3
Alignment explanation
Indices: 1046459--1046496 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
1046449 TGTAACTTAA
*
1046459 AAT AAT AAT AAT ATAT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A
1046497 GTAAAATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1047012 original size:17 final size:17
Alignment explanation
Indices: 1046974--1047013 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1046964 GCATTTCACA
1046974 ATTTTTTCATTTTTTCT
1 ATTTTTTCATTTTTTCT
* *
1046991 CTTTTGTCATTTTTT-T
1 ATTTTTTCATTTTTTCT
1047007 ATTTTTT
1 ATTTTTT
1047014 TGAACACCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.78
Consensus pattern (17 bp):
ATTTTTTCATTTTTTCT
Found at i:1047362 original size:242 final size:243
Alignment explanation
Indices: 1047054--1047625 Score: 764
Period size: 242 Copynumber: 2.4 Consensus size: 243
1047044 GGTCTTACAT
* *
1047054 ATGGCCCGAAGGAC-TTATCATCTTGCTCT-AAAGGCTTATAAATGACCCGAAGGATTTAGGCAT
1 ATGGCCCGAAGGACTTTATCATCTTGCT-TGAAAGGCTTATAGATGACCTGAAGGATTTAGGCAT
* *
1047117 CATGCTCGAAAGACTTACTAATGGTCTCGAATGACTTACTAGGTAAGAAACATTGGAAATCGTTT
65 CATGCTCGAAAGACTTACTAATGG-CTCGAAGGACTTACTACGTAAGAAACATTGGAAATCGTTT
* * *
1047182 TCTTACTTTTTA-AAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAACTTTGGAAATCGCTTT
129 TCTTACTTTTCATAAAAAATCAATTTTCAGAAAAGAATTAAATGAGAAACTTTGGAAATAGCTTT
*
1047246 CTCA-TTTTTCAAAAATCATGTGAAAACATC-CTCCCTGAATGTCTTATGG
194 CTCATTTTTTCAAAAATCATGTGAAAACATCAC-CCCTGAAGGTCTTATGG
* * *
1047295 ATGGCACGAAGGACTTTATCATCTGGCTTGAAAGGCTTATAGATGACCTAAAGGATTTAGGCATC
1 ATGGCCCGAAGGACTTTATCATCTTGCTTGAAAGGCTTATAGATGACCTGAAGGATTTAGGCATC
* * * * ** *
1047360 ATGCTTGAAAGACTCATTGAAT-GCTCGAAGGACTTATTACGTAAGAAATTTTGGAAATTGTTTT
66 ATGCTCGAAAGACTTACT-AATGGCTCGAAGGACTTACTACGTAAGAAACATTGGAAATCGTTTT
* * * *
1047424 CTTACTTTTCATAAAAAATTAATTTTTAGAAAAGAATTAAATGATAAACTTTGGAAATATCTTTC
130 CTTACTTTTCATAAAAAATCAATTTTCAGAAAAGAATTAAATGAGAAACTTTGGAAATAGCTTTC
** * * *
1047489 TCATTTTTTTGAAAATTATGTGAAAATATCACGCCTGAAGGTCTTATGG
195 TCATTTTTTCAAAAATCATGTGAAAACATCACCCCTGAAGGTCTTATGG
* * *
1047538 ATGGCCCGAAGGA-TTTATCATCTTGCTCGAAAGAG-TTATAGATGACCTGAAGGATTTAAGAAT
1 ATGGCCCGAAGGACTTTATCATCTTGCTTGAAAG-GCTTATAGATGACCTGAAGGATTTAGGCAT
*
1047601 CATGCTCGAAAGACTTACTGATGGC
65 CATGCTCGAAAGACTTACTAATGGC
1047626 CCGAGGGAGT
Statistics
Matches: 286, Mismatches: 37, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
241 61 0.21
242 171 0.60
243 53 0.19
244 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (243 bp):
ATGGCCCGAAGGACTTTATCATCTTGCTTGAAAGGCTTATAGATGACCTGAAGGATTTAGGCATC
ATGCTCGAAAGACTTACTAATGGCTCGAAGGACTTACTACGTAAGAAACATTGGAAATCGTTTTC
TTACTTTTCATAAAAAATCAATTTTCAGAAAAGAATTAAATGAGAAACTTTGGAAATAGCTTTCT
CATTTTTTCAAAAATCATGTGAAAACATCACCCCTGAAGGTCTTATGG
Found at i:1047894 original size:59 final size:59
Alignment explanation
Indices: 1047772--1047982 Score: 230
Period size: 59 Copynumber: 3.6 Consensus size: 59
1047762 GAAATCATCG
* * *
1047772 AGAAACTTCTGAAAATCGGACTTAGTTTT-TTT-AAAATTCA-TTTGAAAACATCATGTCA
1 AGAAACCTCTGAAAATCAGACTTA-TTTTCTTTAAAAATT-ATTTTGAAAACAACATGTCA
* * * *
1047830 CGAAACCTCTGAAAATCATACCTATTTTCTTTAAAAATTATTTTGAAAACAACGTGTCA
1 AGAAACCTCTGAAAATCAGACTTATTTTCTTTAAAAATTATTTTGAAAACAACATGTCA
* * * ** * *
1047889 AGAAACTTCTAAAAATCAGACTTAGTTTCTTTAAAAATGCTTTTGAAAACACCATGTTA
1 AGAAACCTCTGAAAATCAGACTTATTTTCTTTAAAAATTATTTTGAAAACAACATGTCA
* * *
1047948 AGAAACCTCTCAAAATTAGACTTAATTTCTTTAAA
1 AGAAACCTCTGAAAATCAGACTTATTTTCTTTAAA
1047983 GATATCATAT
Statistics
Matches: 128, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
57 4 0.03
58 23 0.18
59 101 0.79
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (59 bp):
AGAAACCTCTGAAAATCAGACTTATTTTCTTTAAAAATTATTTTGAAAACAACATGTCA
Found at i:1056979 original size:3 final size:3
Alignment explanation
Indices: 1056971--1057014 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
1056961 TTTTAAGTTA
* *
1056971 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAG ATAG AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT A
1057015 GTAAAATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1059706 original size:25 final size:25
Alignment explanation
Indices: 1059671--1059751 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
1059661 GTCACATATG
* *
1059671 GTGCAAATCTACAAGGCACTTTCGA
1 GTGCAATTCTACGAGGCACTTTCGA
1059696 GTGCAATTCTACGAGGCACTTTCGA
1 GTGCAATTCTACGAGGCACTTTCGA
* * *
1059721 GTGTAATTCTATGAGGCACTTTCGC
1 GTGCAATTCTACGAGGCACTTTCGA
1059746 GTGCAA
1 GTGCAA
1059752 ATATATTTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (25 bp):
GTGCAATTCTACGAGGCACTTTCGA
Found at i:1061763 original size:156 final size:156
Alignment explanation
Indices: 1061362--1061834 Score: 815
Period size: 156 Copynumber: 3.0 Consensus size: 156
1061352 TAGATGAAAC
*
1061362 AAGAAAAATAATGCACCTAACACCCACAGAAAAATTGACACTGTGGCATGACATTGGAGTTTGTA
1 AAGAAAAATAATGCACCTAACACCCACAGAAAAATTGACACT-TGGCATGACAATGGAGTTTGTA
* *
1061427 TTTACCAGAAGAATTCTCTACCCTAGAGATTTTTTTCCTTGTATCAACTTGATCAGCAGCAACCG
65 TTTACCAGAAGAATTCTCTACCCTAGCGATTTTTTTCCTTATATCAACTTGATCAGCAGCAACCG
1061492 GTAATATTATCTACACAGTGCCCCTTA
130 GTAATATTATCTACACAGTGCCCCTTA
*
1061519 AAGAAAAGTAATGCACCTAACACCCACAGAAAAATTGACAC-TGGCATGACAATGGAGTTTGTAT
1 AAGAAAAATAATGCACCTAACACCCACAGAAAAATTGACACTTGGCATGACAATGGAGTTTGTAT
* * *
1061583 TTACCAGAAGAATTCTCTACCCTAGCGTTTTTTTTTCTTATATCGACTTGATCAGCAGCAACCGG
66 TTACCAGAAGAATTCTCTACCCTAGCGATTTTTTTCCTTATATCAACTTGATCAGCAGCAACCGG
*
1061648 TAATATTATGTACACAGTGCCCCTTA
131 TAATATTATCTACACAGTGCCCCTTA
* *
1061674 AA-AAAAATAATGCATCTAACACCCACAGAAAAATTGACACTTTTGCATGACAATGGAGTTTGTA
1 AAGAAAAATAATGCACCTAACACCCACAGAAAAATTGACAC-TTGGCATGACAATGGAGTTTGTA
1061738 TTTACCAGAAGAATTCTCTACCCTAGCGATTTTTTTCCTTATATCAACTTGATCAGCAGCAACCG
65 TTTACCAGAAGAATTCTCTACCCTAGCGATTTTTTTCCTTATATCAACTTGATCAGCAGCAACCG
*
1061803 GTAATATTATCTACACAGTGTCCCTTA
130 GTAATATTATCTACACAGTGCCCCTTA
1061830 AAGAA
1 AAGAA
1061835 CAATTATCTT
Statistics
Matches: 297, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
154 36 0.12
155 109 0.37
156 110 0.37
157 42 0.14
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (156 bp):
AAGAAAAATAATGCACCTAACACCCACAGAAAAATTGACACTTGGCATGACAATGGAGTTTGTAT
TTACCAGAAGAATTCTCTACCCTAGCGATTTTTTTCCTTATATCAACTTGATCAGCAGCAACCGG
TAATATTATCTACACAGTGCCCCTTA
Found at i:1069904 original size:89 final size:88
Alignment explanation
Indices: 1069753--1069919 Score: 244
Period size: 89 Copynumber: 1.9 Consensus size: 88
1069743 ACCCTAATTA
* *
1069753 TTAGTGAGGATTCCTAATATATTATTGAGATAGTTAGTATAATAGCGCATTCACCATTGATGAAC
1 TTAGTGAGGATTCCTAATATATTATTGAGATAGTTAGTATAATAGCGCAATCACCATCGATGAAC
1069818 CCTAATTTGGTCTTCACTAATTTG
66 CC-AATTTGGTCTTCACTAATTTG
* * * * * *
1069842 TTAGTGAGGATTCCTAATGTGTTTTTGAGATAGTTAGTATAATAGTGCAATCATCGTCGATGAAC
1 TTAGTGAGGATTCCTAATATATTATTGAGATAGTTAGTATAATAGCGCAATCACCATCGATGAAC
*
1069907 CCAATTTGTTCTT
66 CCAATTTGGTCTT
1069920 TATTAACAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
88 10 0.14
89 59 0.86
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.39
Consensus pattern (88 bp):
TTAGTGAGGATTCCTAATATATTATTGAGATAGTTAGTATAATAGCGCAATCACCATCGATGAAC
CCAATTTGGTCTTCACTAATTTG
Found at i:1070823 original size:89 final size:89
Alignment explanation
Indices: 1070663--1070844 Score: 276
Period size: 89 Copynumber: 2.0 Consensus size: 89
1070653 TCGATAAACC
1070663 CTAATTTATTAGTGAGGATTCCTAATGTGTTATTGAGATAGTTAATATAATAACGCAATCACCAA
1 CTAATTTATTAGTGAGGATTCCTAATGTGTTATTGAGATAGTTAATATAATAACGCAATCACCAA
* *
1070728 TGATGAACCCTAATTTGGTCTTCG
66 TAATGAACCCTAATTTGGTCTTCA
* * * *
1070752 CTAATTTATTAGTGAGGATTCCTAATGTGTTATTGGGATAGTTAGTATAATAGCGCAATCACC-G
1 CTAATTTATTAGTGAGGATTCCTAATGTGTTATTGAGATAGTTAATATAATAACGCAATCACCAA
* *
1070816 TCAATGAACCTTAATTTGTTCTTCA
66 T-AATGAACCCTAATTTGGTCTTCA
1070841 CTAA
1 CTAA
1070845 CAACATAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 1 0.01
89 83 0.99
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (89 bp):
CTAATTTATTAGTGAGGATTCCTAATGTGTTATTGAGATAGTTAATATAATAACGCAATCACCAA
TAATGAACCCTAATTTGGTCTTCA
Found at i:1075829 original size:8 final size:8
Alignment explanation
Indices: 1075814--1075877 Score: 107
Period size: 8 Copynumber: 8.4 Consensus size: 8
1075804 GAAAAAAATG
1075814 AAAA-AGA
1 AAAAGAGA
1075821 AAAAGAGA
1 AAAAGAGA
1075829 AAAAGAGA
1 AAAAGAGA
1075837 AAAAGAGA
1 AAAAGAGA
1075845 AAAAGAGA
1 AAAAGAGA
1075853 AAAAGAG-
1 AAAAGAGA
1075860 AAAAGAGA
1 AAAAGAGA
1075868 AAAA-AGA
1 AAAAGAGA
1075875 AAA
1 AAA
1075878 GAAAAGAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
7 17 0.31
8 38 0.69
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAGAGA
Found at i:1075845 original size:24 final size:23
Alignment explanation
Indices: 1075804--1075877 Score: 107
Period size: 23 Copynumber: 3.2 Consensus size: 23
1075794 GCCTTAAATT
*
1075804 GAAAAAAATGAAAA-AGAAAAAGA
1 GAAAAAGA-GAAAAGAGAAAAAGA
1075827 GAAAAAGAGAAAAAGAGAAAAAGA
1 GAAAAAGAG-AAAAGAGAAAAAGA
1075851 GAAAAAGAGAAAAGAGAAAAA-A
1 GAAAAAGAGAAAAGAGAAAAAGA
1075873 GAAAA
1 GAAAA
1075878 GAAAAGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
22 7 0.15
23 23 0.48
24 18 0.38
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (23 bp):
GAAAAAGAGAAAAGAGAAAAAGA
Found at i:1075885 original size:24 final size:23
Alignment explanation
Indices: 1075804--1075887 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 23
1075794 GCCTTAAATT
*
1075804 GAAAAAAATGAAAA-AG-AAAAA
1 GAAAAAAAAGAAAAGAGAAAAAA
*
1075825 GAGAAAAAGAGAAAA-AGAGAAAAA
1 GA-AAAAAAAGAAAAGAGA-AAAAA
*
1075849 GAGAAAAAGAGAAAAGAGAAAAAA
1 GA-AAAAAAAGAAAAGAGAAAAAA
1075873 GAAAAGAAAAGAAAA
1 GAAAA-AAAAGAAAA
1075888 TAAGGTTGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
21 2 0.04
22 12 0.22
23 3 0.05
24 35 0.64
25 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (23 bp):
GAAAAAAAAGAAAAGAGAAAAAA
Found at i:1075887 original size:15 final size:14
Alignment explanation
Indices: 1075804--1075887 Score: 62
Period size: 16 Copynumber: 5.6 Consensus size: 14
1075794 GCCTTAAATT
*
1075804 GAAAAAAATGAAAA
1 GAAAAAAAAGAAAA
*
1075818 -AGAAAAAGAGAAAAA
1 GA-AAAAAAAG-AAAA
*
1075833 GAGAAAAAGAGAAAAA
1 GA-AAAAAAAG-AAAA
*
1075849 GAGAAAAAGAGAAAA
1 GA-AAAAAAAGAAAA
*
1075864 GAGAAAAAAGAAAA
1 GAAAAAAAAGAAAA
1075878 GAAAAGAAAA
1 GAAAA-AAAA
1075888 TAAGGTTGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
13 1 0.02
14 20 0.33
15 14 0.23
16 26 0.43
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (14 bp):
GAAAAAAAAGAAAA
Found at i:1080751 original size:6 final size:6
Alignment explanation
Indices: 1080736--1080772 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1080726 TCTAAGTTAA
*
1080736 AAAAAG -AAAAG AAAAAG AAAAA- TAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1080773 GAATGTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 9 0.33
6 18 0.67
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:1080762 original size:17 final size:17
Alignment explanation
Indices: 1080736--1080772 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1080726 TCTAAGTTAA
1080736 AAAAAGAAAAGAAAAAG
1 AAAAAGAAAAGAAAAAG
*
1080753 AAAAATAAAAGAAAAAG
1 AAAAAGAAAAGAAAAAG
1080770 AAA
1 AAA
1080773 GAATGTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAG
Found at i:1080846 original size:16 final size:16
Alignment explanation
Indices: 1080822--1080859 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1080812 GAAAAAATGA
* *
1080822 AAAAGAAAAAGAGAA-
1 AAAATAAAAAGAAAAG
1080837 AAAATAAAAAGAAAAG
1 AAAATAAAAAGAAAAG
1080853 AAAATAA
1 AAAATAA
1080860 GGTGGGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (16 bp):
AAAATAAAAAGAAAAG
Found at i:1083770 original size:2 final size:2
Alignment explanation
Indices: 1083763--1083797 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1083753 TGTATCATTG
1083763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1083798 TATTTTCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1083871 original size:5 final size:5
Alignment explanation
Indices: 1083849--1084018 Score: 82
Period size: 5 Copynumber: 34.0 Consensus size: 5
1083839 TTGCCTAATT
* * * *
1083849 TTTTA ATTTA TTTT- TTTTA TTTTT TTTTA TTTT- TTTTA TAATGTA GTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T--TTTA TTTTA
* * * * * ** * *
1083899 GTTT- TTTTA ATTTA TTTTC TGTTTT TTTTA TCTT- TTTGG CTTTA TTTGA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * * *
1083948 TCTAA TTTCCT- TTTTA TTTTA TTTTA TTTTA TTTTG TTTTG TTTTA -TTTA
1 TTTTA TTT--TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
1083998 TTTTA TTTGTA TTTTA CTTTA
1 TTTTA TTT-TA TTTTA TTTTA
1084019 CCACATGTTA
Statistics
Matches: 125, Mismatches: 28, Indels: 24
0.71 0.16 0.14
Matches are distributed among these distances:
4 18 0.14
5 92 0.74
6 12 0.10
7 3 0.02
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:1093888 original size:18 final size:18
Alignment explanation
Indices: 1093851--1093884 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1093841 TTTTAAGATT
*
1093851 TTATATTCGATTTAAATA
1 TTATATTCGAATTAAATA
1093869 TTATATTC-AATTAAAT
1 TTATATTCGAATTAAAT
1093885 TATTCAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (18 bp):
TTATATTCGAATTAAATA
Found at i:1094439 original size:22 final size:22
Alignment explanation
Indices: 1094378--1094439 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
1094368 TTATACAAGT
* * *
1094378 AGTATCGATACCCCTACGAAGG
1 AGTATCGATACCCATATGAAAG
*
1094400 AGTATCGATACCCGTATGAAAG
1 AGTATCGATACCCATATGAAAG
*
1094422 AGTACCGATACCCATATG
1 AGTATCGATACCCATATG
1094440 CTCCCAGCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (22 bp):
AGTATCGATACCCATATGAAAG
Found at i:1095688 original size:18 final size:18
Alignment explanation
Indices: 1095651--1095684 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1095641 TTTTAAGATT
1095651 TTATATTCGATTTAAATA
1 TTATATTCGATTTAAATA
1095669 TTATATTCGA-TTAAAT
1 TTATATTCGATTTAAAT
1095685 TATTCGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
TTATATTCGATTTAAATA
Found at i:1096121 original size:44 final size:44
Alignment explanation
Indices: 1096025--1096121 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
1096015 CCATGTTCGG
** * **
1096025 TATCGATACTACTTTACATAGTAGTATCGATACTCACTGGATGA
1 TATCGATACTACTGCACATAGTAGTATCAATACTCACTGGACAA
* *
1096069 TATAGATACTACTGCACATAGTAGTGTCAATACTC-CTTGGACAA
1 TATCGATACTACTGCACATAGTAGTATCAATACTCAC-TGGACAA
1096113 TATCGATAC
1 TATCGATAC
1096122 CGTTGGTTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 1 0.02
44 43 0.98
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (44 bp):
TATCGATACTACTGCACATAGTAGTATCAATACTCACTGGACAA
Found at i:1100856 original size:3 final size:3
Alignment explanation
Indices: 1100848--1100968 Score: 170
Period size: 3 Copynumber: 39.7 Consensus size: 3
1100838 TTATTTATTA
*
1100848 AAT AAT AAT AAT ATAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
1100895 AAT AAT AAT AAT AAT TAT AAT TAT AAT AAT AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
1100943 AAT AAT AAT AAT TTT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1100969 ATTTAAATGA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
3 98 0.94
4 6 0.06
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1101226 original size:76 final size:76
Alignment explanation
Indices: 1101095--1101282 Score: 333
Period size: 76 Copynumber: 2.5 Consensus size: 76
1101085 GATGGAAATG
* * *
1101095 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCTAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1101160 CTCGAAGGCTT
66 CTCGAAGGCTT
1101171 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAGAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAA-AACATCAAAAAGC
1101235 TCTCGAAGGCTT
65 TCTCGAAGGCTT
1101247 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1101283 AGGAAATAGT
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
75 2 0.02
76 106 0.98
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CTCGAAGGCTT
Found at i:1101679 original size:90 final size:90
Alignment explanation
Indices: 1101526--1101729 Score: 374
Period size: 90 Copynumber: 2.3 Consensus size: 90
1101516 TTCTTCAGAA
*
1101526 GAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGACCTATTTCCTGTGATAGAGTCAT
1 GAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGATGACCTATTTCCTGTGATAGAGTCAT
1101591 TCAAAAAGTTGAATAAGCTCTTGAT
66 TCAAAAAGTTGAATAAGCTCTTGAT
*
1101616 GAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGATGACCTCCTTT-CTGTGATAGAGTCA
1 GAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGATGACCT-ATTTCCTGTGATAGAGTCA
1101680 TTCAAAAAGTTGAATAAGCTCTTGAT
65 TTCAAAAAGTTGAATAAGCTCTTGAT
1101706 GAGTTCTTCTCATTATGAACTTTC
1 GAGTTCTTCTCATTATGAACTTTC
1101730 TCTTCCTTCT
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
90 108 0.97
91 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (90 bp):
GAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGATGACCTATTTCCTGTGATAGAGTCAT
TCAAAAAGTTGAATAAGCTCTTGAT
Found at i:1101975 original size:113 final size:114
Alignment explanation
Indices: 1101752--1102020 Score: 454
Period size: 113 Copynumber: 2.4 Consensus size: 114
1101742 AGATAATATC
* *
1101752 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAA-CTCCTTCTTCCTTCTTCAGATGAGTTCTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCT-CTTCTTCCTTCTTCAGATGAGTTCTT
* *
1101815 TTCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
65 TTCATTCATGAACCTTCTCTGGCAATGTTGATCCATCAAATAATGAATTT
1101865 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTT
*
1101930 TCATT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATAATGAATTT
66 TCATTCATGAACCTTCTCTGGCAATGTTGATCCATCAAATAATGAATTT
*
1101978 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCT
1102021 GATAATGTTG
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
113 86 0.58
114 60 0.41
115 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (114 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTT
TCATTCATGAACCTTCTCTGGCAATGTTGATCCATCAAATAATGAATTT
Found at i:1102049 original size:186 final size:184
Alignment explanation
Indices: 1101808--1102204 Score: 679
Period size: 186 Copynumber: 2.1 Consensus size: 184
1101798 TCTTCAGATG
* * *
1101808 AGTTCTTTTCATTCATGAACTT-TCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAA
1 AGTTCTTCTCATT-ATGAACTTCT-TCTGACAATGTTGATCCATCAAATAATGAATTTAAACAAA
*
1101872 AAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTAT
64 AAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
*
1101937 GAACCTTCTCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACA
129 GAACCTTCTCTGGTAATGTTGATCCATCAAAT--GGAATTTAAACAAAAAGTTGAACA
*
1101995 AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1 AGTTCTTCTCATTATGAACTTCTTCTGACAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
*
1102060 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
66 GTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
1102125 ACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACA
131 ACCTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACA
1102179 AGTTCTTCTCATTATGAACTTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCT
1102205 TCCTTCTTCA
Statistics
Matches: 201, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
184 49 0.24
186 139 0.69
187 13 0.06
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (184 bp):
AGTTCTTCTCATTATGAACTTCTTCTGACAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
GTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACCTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACA
Found at i:1102091 original size:73 final size:73
Alignment explanation
Indices: 1101922--1102093 Score: 310
Period size: 73 Copynumber: 2.4 Consensus size: 73
1101912 TCTTCAGATG
* *
1101922 AGTTCTTTTCATTATGAACCTTC-TCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAA
1 AGTTCTTCTCATTATGAA-CTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAA
1101986 AGTTGAACA
65 AGTTGAACA
1101995 AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1 AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1102060 GTTGAACA
66 GTTGAACA
1102068 AGTTCTTCTCATTATGAACTTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCT
1102094 TCCTTCTTCA
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
72 4 0.04
73 92 0.96
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
GTTGAACA
Found at i:1102112 original size:113 final size:113
Alignment explanation
Indices: 1101995--1102317 Score: 598
Period size: 111 Copynumber: 2.9 Consensus size: 113
1101985 AAGTTGAACA
*
1101995 AGTTCTTCTCATTATGAAC-TTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAA
1 AGTTCTTCTCATTATGAACTTTC-TCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAA
1102059 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
65 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
*
1102108 AGTTCTTCTCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAAT--GGAATTTAAACAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1102171 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1102219 AGTTCTTCTCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1 AGTTCTTCTCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1102284 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1102318 GATAATGTTG
Statistics
Matches: 204, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
111 110 0.54
113 91 0.45
114 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:1102205 original size:297 final size:297
Alignment explanation
Indices: 1101752--1102614 Score: 1575
Period size: 297 Copynumber: 2.9 Consensus size: 297
1101742 AGATAATATC
* * * *
1101752 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
1101816 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAAC
66 TCATT-ATGAACTTTCTCTGGTAATGTTGATCCATCAAATG--GAATTTAAACAAAAAGTTGAAC
* * *
1101881 AAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACCTTCT
128 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1101946 CTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
193 CTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
1102011 AACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTT
258 AACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTT
1102051 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1102116 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACAAG
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACAAG
1102181 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1102246 GTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
196 GTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
1102311 TTCTTCTGATAATGTTGATCCATCAAATAATGAATTT
261 TTCTTCTGATAATGTTGATCCATCAAATAATGAATTT
1102348 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1102413 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACAAG
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACAAG
1102478 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * *
1102543 GTAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
196 GTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
1102608 TTCTTCT
261 TTCTTCT
1102615 TCCTTCTTCA
Statistics
Matches: 550, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
297 451 0.82
299 38 0.07
300 61 0.11
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (297 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACAAG
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTGATAATGTTGATCCATCAAATAATGAATTT
Found at i:1102338 original size:73 final size:73
Alignment explanation
Indices: 1102219--1102390 Score: 319
Period size: 73 Copynumber: 2.4 Consensus size: 73
1102209 TCTTCAGATG
*
1102219 AGTTCTTCTCATTATGAACTT-TCTCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAA
1 AGTTCTTCTCATTATGAACTTCT-TCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAA
1102283 AGTTGAACA
65 AGTTGAACA
1102292 AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1 AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1102357 GTTGAACA
66 GTTGAACA
1102365 AGTTCTTCTCATTATGAACTTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCT
1102391 TCCTTCTTCA
Statistics
Matches: 97, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
73 96 0.99
74 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
GTTGAACA
Found at i:1102409 original size:113 final size:114
Alignment explanation
Indices: 1102292--1103000 Score: 1031
Period size: 113 Copynumber: 6.2 Consensus size: 114
1102282 AAGTTGAACA
* * *
1102292 AGTTCTTCTCATTATGAACTTCT-TCT-GATAATGTTGATCCATCAAATAATGAATTTAAACAAA
1 AGTTCTTCTCATTATGAACTTCTCTCTGGA-AATGATGATCCATCAAATGATGAATTCAAACAAA
*
1102355 AAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
65 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * *
1102405 AGTTCTTCTCATTATGAACTT-TCTCTGGTAATGTTGATCCATCAAATG--GAATTTAAACAAAA
1 AGTTCTTCTCATTATGAACTTCTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAA
*
1102467 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * *
1102516 AGTTCTTCTCATTATGAACTT-TCTCTGGTAATGTTGATCCATCAAATGATGAATTCAAGCAAAA
1 AGTTCTTCTCATTATGAACTTCTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAA
*
1102580 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * * **
1102629 AGTTCTTCTCATTATGAACTT-TCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAA
1 AGTTCTTCTCATTATGAACTTCTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAA
1102693 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
66 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * * *
1102742 AGTTCTTCTCATTATGAACCT-TCTCTGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAA
1 AGTTCTTCTCATTATGAACTTCTCTCTGGAAATG-ATGATCCATCAAATGATGAATTCAAACAAA
*
1102806 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACG
65 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---G
* * * * *
1102859 AGTTCTTCTCATTGTGAAC-TCTTCCTCTAGAAACGATGATCCATCAATTTGATGAATTCAAGCA
1 AGTTCTTCTCATTATGAACTTC-T-CTCTGGAAATGATGATCCATCAA-ATGATGAATTCAAACA
1102923 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
63 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1102975 AGTTCTTCTCATTATGAACCTTCTCT
1 AGTTCTTCTCATTATGAA-CTTCTCT
1103001 AAAATATGAT
Statistics
Matches: 553, Mismatches: 29, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
111 111 0.20
112 1 0.00
113 239 0.43
114 73 0.13
116 21 0.04
117 21 0.04
118 15 0.03
119 72 0.13
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (114 bp):
AGTTCTTCTCATTATGAACTTCTCTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAA
GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:1102420 original size:186 final size:182
Alignment explanation
Indices: 1102108--1102501 Score: 709
Period size: 186 Copynumber: 2.1 Consensus size: 182
1102098 TCTTCAGATG
*
1102108 AGTTCTTCTCATTATGAACTT-TCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAG
1 AGTTCTTCTCATTATGAACTTCT-TCTGATAATGTTGATCCATCAAATGGAATTTAAACAAAAAG
1102172 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
65 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
*
1102237 CTTTCTCTGGTAATGTTGATCCATCAAATAATGAATTTAAACAAAAAGTTGAACA
130 CTTTCTCTGGTAATGTTGATCCATCAAAT--GGAATTTAAACAAAAAGTTGAACA
*
1102292 AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAAA
1 AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAAT--GGAATTTAAACAAAAA
1102357 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
64 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1102422 ACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACA
129 ACTTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACA
1102476 AGTTCTTCTCATTATGAACTTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCT
1102502 TCCTTCTTCA
Statistics
Matches: 204, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
184 93 0.46
185 1 0.00
186 110 0.54
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (182 bp):
AGTTCTTCTCATTATGAACTTCTTCTGATAATGTTGATCCATCAAATGGAATTTAAACAAAAAGT
TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
TTTCTCTGGTAATGTTGATCCATCAAATGGAATTTAAACAAAAAGTTGAACA
Found at i:1102522 original size:224 final size:226
Alignment explanation
Indices: 1102292--1102998 Score: 1082
Period size: 224 Copynumber: 3.1 Consensus size: 226
1102282 AAGTTGAACA
*
1102292 AGTTCTTCTCATTATGAA-CTTCTTCTGATAATGTTGATCCATCAAATAATGAATTTAAACAAAA
1 AGTTCTTCTCATTATGAACCTTCTTCTGATAATGTTGATCCATCAAATGATGAATTTAAACAAAA
* *
1102356 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
66 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* * * * * *
1102421 AACTTTCTCTGGTAATGTTGATCCATCAAATG-GAATTTAAACAAAAAGTTGAACAAGTTCTTCT
131 AACTTTCTCTGGAAAAGATGATCCATCAAATGAGAATTCAAGCAAAAGGTTGAACAAGTTCTTCT
1102485 CATTATGAACTTCTTCTTCCTTCTTCAGATG
196 CATTATGAACTTCTTCTTCCTTCTTCAGATG
* * * *
1102516 AGTTCTTCTCATTATGAACTTTC-TCTGGTAATGTTGATCCATCAAATGATGAATTCAAGCAAAA
1 AGTTCTTCTCATTATGAACCTTCTTCTGATAATGTTGATCCATCAAATGATGAATTTAAACAAAA
1102580 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
66 GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
* * *
1102645 AACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGCAAAAGGTTGAACAAGTTCTTC
131 AACTTTCTCTGGAAAAGATGATCCATCAAATGA-GAATTCAAGCAAAAGGTTGAACAAGTTCTTC
1102710 TCATTATGAACTTCTTCTTCCTTCTTCAGATG
195 TCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * *
1102742 AGTTCTTCTCATTATGAACCTTC-TCTGGA-AAAGAATGATCCATCAAGTGATGAATTTAAACAA
1 AGTTCTTCTCATTATGAACCTTCTTCT-GATAATG-TTGATCCATCAAATGATGAATTTAAACAA
1102805 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCA
64 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCA
* * * *
1102870 TTGTGAACTCTTCCTCTAGAAACGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
126 TTATGAACT-TT-CTCTGGAAAAGATGATCCATCAA-ATGA-GAATTCAAGCAAAAGGTTGAACA
1102935 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
187 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1102975 AGTTCTTCTCATTATGAACCTTCT
1 AGTTCTTCTCATTATGAACCTTCT
1102999 CTAAAATATG
Statistics
Matches: 441, Mismatches: 30, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
224 146 0.33
225 3 0.01
226 86 0.20
227 76 0.17
230 20 0.05
231 2 0.00
232 20 0.05
233 88 0.20
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (226 bp):
AGTTCTTCTCATTATGAACCTTCTTCTGATAATGTTGATCCATCAAATGATGAATTTAAACAAAA
GGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
AACTTTCTCTGGAAAAGATGATCCATCAAATGAGAATTCAAGCAAAAGGTTGAACAAGTTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:1103404 original size:22 final size:22
Alignment explanation
Indices: 1103379--1103433 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1103369 CATAAAGTTT
* *
1103379 TCATCTTTGAAAGGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
1103401 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1103423 TCATCTTTGAA
1 TCATCTTTGAA
1103434 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1108133 original size:15 final size:16
Alignment explanation
Indices: 1108115--1108151 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
1108105 CAATTTTCCT
1108115 TTTTCTTTTTTT-TTC
1 TTTTCTTTTTTTCTTC
1108130 TTTT-TTTTTTTCTTC
1 TTTTCTTTTTTTCTTC
1108145 -TTTCTTT
1 TTTTCTTT
1108152 GCTGGATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTTTTTCTTC
Found at i:1108134 original size:11 final size:10
Alignment explanation
Indices: 1108114--1108151 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1108104 TCAATTTTCC
1108114 TTTTTCTTTT
1 TTTTTCTTTT
1108124 TTTTTCTTTT
1 TTTTTCTTTT
*
1108134 TTTTT-TTCT
1 TTTTTCTTTT
*
1108143 TCTTTCTTT
1 TTTTTCTTT
1108152 GCTGGATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:1110608 original size:14 final size:14
Alignment explanation
Indices: 1110589--1110628 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1110579 GCAAAGATGC
1110589 CAAATGTAAATATG
1 CAAATGTAAATATG
*
1110603 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
1110617 TAAATGTAAATA
1 CAAATGTAAATA
1110629 CAAACGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (14 bp):
CAAATGTAAATATG
Done.